Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007364.1 Hibiscus syriacus cultivar Beakdansim tig00019757_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 120705
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:9852 original size:18 final size:19
Alignment explanation
Indices: 9829--9891 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
9819 ATAAAAAATA
9829 AATATAATTATAAT-TAAT
1 AATATAATTATAATATAAT
9847 AATATAATTTATTAAATATAAT
1 AATATAA-TTA-T-AATATAAT
*
9869 AA-ATAATTAAAATATAAT
1 AATATAATTATAATATAAT
9887 AATAT
1 AATAT
9892 GTAAATATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 17 0.44
19 5 0.13
20 4 0.10
21 7 0.18
22 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATAATTATAATATAAT
Found at i:9887 original size:14 final size:14
Alignment explanation
Indices: 9838--9914 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 14
9828 AAATATAATT
9838 ATAATTAATAATATA
1 ATAATTAA-AATATA
*
9853 ATTTATTAAATATAATAA
1 A-TAATTAAA-AT-AT-A
9871 ATAATTAAAATATA
1 ATAATTAAAATATA
*
9885 ATAATATGTAAATATA
1 ATAAT-T-AAAATATA
* *
9901 GTAACTAAAATATA
1 ATAATTAAAATATA
9915 TATTTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 13 0.26
15 6 0.12
16 20 0.40
17 9 0.18
18 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (14 bp):
ATAATTAAAATATA
Found at i:9890 original size:26 final size:25
Alignment explanation
Indices: 9819--9891 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 25
9809 TTAAGTGGAT
*
9819 ATAAAAAAT-AAATATAAT--TATA
1 ATAAATAATAAAATATAATAATATA
* * * *
9841 ATTAATAATATAATTTATTAAATATA
1 ATAAATAATAAAATATAAT-AATATA
9867 ATAAATAATTAAAATATAATAATAT
1 ATAAATAA-TAAAATATAATAATAT
9892 GTAAATATAG
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 7 0.19
23 6 0.16
26 16 0.43
27 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAAATAATAAAATATAATAATATA
Found at i:16141 original size:2 final size:2
Alignment explanation
Indices: 16134--16158 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16124 TTTCTTTTAA
16134 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16159 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16872 original size:119 final size:120
Alignment explanation
Indices: 16544--16947 Score: 419
Period size: 121 Copynumber: 3.4 Consensus size: 120
16534 AAGTTTAGGT
* * * * * *
16544 ACTAAAACTTATAGTTTAGATACTAATTGCGTTAAGTTTTTAATTGTGGGTAATAAAATGAAACA
1 ACTAAAAATAATAGTTTAGGTACTAAATGCGTTAAG-TTTTAACTGTGGGTACTAAAATGAAACA
* * * * *
16609 AAAACTAAACATTAGATATGAATTTTAAAAAAAATTAAAAGTATAGATACT-AAA-GG
65 AAAACTAAACTTTAGATATG-ATTTT-GAAAAAATTAAAAGTTTAGGTAATAAAATGG
* * * * *
16665 ACTAAAACTTATAGTTTAGGTACTAATTGCATTAAATTTTTAACTGTGGGGTACTAAAATGAAAC
1 ACTAAAAATAATAGTTTAGGTACTAAATGCGTT-AAGTTTTAACTGT-GGGTACTAAAATGAAAC
*
16730 AAAAACTAAA-TGTTAGACATGATTTTGAAAAAATTAAAAGTTTAGGTAATAAAATGG
64 AAAAACTAAACT-TTAGATATGATTTTGAAAAAATTAAAAGTTTAGGTAATAAAATGG
* * * * *
16787 ACCAAAAATGATAG-TTAGGTACTAAATGTGTTAAGTTTTAACGGTGGGTACTGAAATGAAACAA
1 ACTAAAAATAATAGTTTAGGTACTAAATGCGTTAAGTTTTAACTGTGGGTACTAAAATGAAACAA
* * * * *
16851 AAACTAAACTTTA-AGTGTGA-TTTGAAAAAAATGAAAGTTTAAGTATTAAAAT-G
66 AAACTAAACTTTAGA-TATGATTTTGAAAAAATTAAAAGTTTAGGTAATAAAATGG
*
16904 AGCTAAAAATAATAGTTTAGAG-ACTAAATGTGTTAAGTTTTAAC
1 A-CTAAAAATAATAGTTTAG-GTACTAAATGCGTTAAGTTTTAAC
16948 AGCAATGTAC
Statistics
Matches: 245, Mismatches: 28, Indels: 22
0.83 0.09 0.07
Matches are distributed among these distances:
117 2 0.01
118 40 0.16
119 58 0.24
120 33 0.13
121 63 0.26
122 49 0.20
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (120 bp):
ACTAAAAATAATAGTTTAGGTACTAAATGCGTTAAGTTTTAACTGTGGGTACTAAAATGAAACAA
AAACTAAACTTTAGATATGATTTTGAAAAAATTAAAAGTTTAGGTAATAAAATGG
Found at i:23843 original size:25 final size:24
Alignment explanation
Indices: 23802--23848 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23792 TCAAGATAAC
* * *
23802 AATAAAAAATATTGATAGATTATA
1 AATAAAAAAGATGGATAAATTATA
23826 AATAAAAAAGATAGGATAAATTA
1 AATAAAAAAGAT-GGATAAATTA
23849 CACGTTTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.28
Consensus pattern (24 bp):
AATAAAAAAGATGGATAAATTATA
Found at i:47448 original size:21 final size:21
Alignment explanation
Indices: 47401--47449 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
47391 TGACTATCGC
47401 AATGCGATTTTCCAATTTCGT
1 AATGCGATTTTCCAATTTCGT
**
47422 GTTGCGATTTTACCAA-TTCGT
1 AATGCGATTTT-CCAATTTCGT
47443 AATGCGA
1 AATGCGA
47450 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
AATGCGATTTTCCAATTTCGT
Found at i:47468 original size:20 final size:20
Alignment explanation
Indices: 47443--47510 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
47433 ACCAATTCGT
47443 AATGCGAATAAGTAAATCGC
1 AATGCGAATAAGTAAATCGC
47463 AATGCGAATAAGTAAATCGC
1 AATGCGAATAAGTAAATCGC
** *
47483 AATGCGAATTTGGAAAATCGC
1 AATGCGAA-TAAGTAAATCGC
47504 AATGCGA
1 AATGCGA
47511 TACTGACTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (20 bp):
AATGCGAATAAGTAAATCGC
Found at i:47523 original size:41 final size:42
Alignment explanation
Indices: 47496--47633 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 42
47486 GCGAATTTGG
47496 AAAATCGCAATGCGATACTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
* **
47537 AAAATCGCAATGCGATACTGACTTTCGCAACGCG-ATTCTGAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAAT-AC
** * * * *
47579 --TTTCGCAACGAGATTCTGACTATCGCAACGAG-ATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
*
47618 AGAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
47634 TTTCAAAGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 28 0.36
41 46 0.59
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
Found at i:47524 original size:20 final size:20
Alignment explanation
Indices: 47499--47613 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
47489 AATTTGGAAA
*
47499 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
47519 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
47540 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
47560 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
47580 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
47600 ATCGCAACGAGATA
1 ATCGCAACGCGATA
47614 ATACAGAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.77
21 14 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:48192 original size:20 final size:20
Alignment explanation
Indices: 48163--48254 Score: 148
Period size: 20 Copynumber: 4.6 Consensus size: 20
48153 GGGGAAATCA
* *
48163 CAACGTGAAAATGACTATCG
1 CAACGAGAAAATGGCTATCG
*
48183 CAACGCGAAAATGGCTATCG
1 CAACGAGAAAATGGCTATCG
*
48203 CAACGCGAAAATGGCTATCG
1 CAACGAGAAAATGGCTATCG
48223 CAACGAGAAAATGGCTATCG
1 CAACGAGAAAATGGCTATCG
48243 CAACGAGAAAAT
1 CAACGAGAAAAT
48255 CGTAATGCGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (20 bp):
CAACGAGAAAATGGCTATCG
Found at i:48314 original size:19 final size:19
Alignment explanation
Indices: 48273--48337 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
48263 GAAATGAAAA
48273 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
48289 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48306 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
48325 TCGCATTGTGATT
1 TCGCATTGCGATT
48338 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:49968 original size:41 final size:42
Alignment explanation
Indices: 49923--50012 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
49913 CCTCTTCAAC
* *
49923 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
49964 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
50006 GATGACA
1 GATGACA
50013 AGTGAGTCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.21, C:0.16, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:49979 original size:21 final size:21
Alignment explanation
Indices: 49950--50010 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
49940 GAACGGTGGG
*
49950 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
49971 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
49992 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
50011 CAAGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:50391 original size:20 final size:20
Alignment explanation
Indices: 50353--50433 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
50343 GAAGAATAGT
* *
50353 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACGCGAAAA
*
50373 TTACTTTCGCAACGTGAAAA
1 TTACTTTCGCAACGCGAAAA
* * *
50393 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACGCGAAAA
* * *
50413 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACGCGAAAA
50433 T
1 T
50434 GGCTATCGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (20 bp):
TTACTTTCGCAACGCGAAAA
Found at i:50403 original size:40 final size:40
Alignment explanation
Indices: 50359--50444 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
50349 TAGTTTACTT
* * *
50359 TCGCAACAC-GAAACTTACTTTCGCAACGTGAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGAAAATGACTA
* * *
50399 TCGCAACGCGGAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
50439 TCGCAA
1 TCGCAA
50445 TGCGAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
Found at i:50434 original size:20 final size:20
Alignment explanation
Indices: 50379--50465 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
50369 AAACTTACTT
* *
50379 TCGCAACGTGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
50399 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
50419 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
50439 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
50458 TCGCAACG
1 TCGCAACG
50466 ACAAAATCGC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 14 0.24
20 45 0.76
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:50460 original size:19 final size:19
Alignment explanation
Indices: 50438--50503 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
50428 GGAAATGGCT
50438 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
50457 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
50471 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
50490 ATCGAAACGCGAAA
1 ATCGCAATGCGAAA
50504 CACAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:50532 original size:19 final size:19
Alignment explanation
Indices: 50510--50606 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
50500 GAAACACAAA
50510 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
50529 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
50545 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
50562 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
50578 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
50595 TCGCATTGCGAT
1 TCGCATTGCGAT
50607 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 12 0.19
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 23 0.37
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:50551 original size:14 final size:14
Alignment explanation
Indices: 50532--50590 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
50522 TTTCATTTCG
50532 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
50546 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
50563 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
50579 CGTTGCGATTTT
1 CGTTGCGATTTT
50591 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:50557 original size:33 final size:33
Alignment explanation
Indices: 50515--50606 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
50505 ACAAATCGCA
*
50515 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
50548 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
50581 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
50607 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:50625 original size:20 final size:19
Alignment explanation
Indices: 50591--50645 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
50581 TTGCGATTTT
*
50591 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
50610 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
50630 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
50646 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:51201 original size:18 final size:18
Alignment explanation
Indices: 51178--51225 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
51168 CGGGTCGATC
51178 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
51196 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
51214 AGGTGATGGCTC
1 AGGTGATGGCTC
51226 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:52598 original size:20 final size:20
Alignment explanation
Indices: 52545--52587 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
52535 AATAGTTTCT
* *
52545 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
52565 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
52585 GAA
1 GAA
52588 TTTGACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:52894 original size:22 final size:22
Alignment explanation
Indices: 52867--52910 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52857 GATGGAGATA
52867 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
52889 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
52911 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:53125 original size:20 final size:20
Alignment explanation
Indices: 53097--53210 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
53087 GATTATGTAT
*
53097 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
53117 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
53137 TATTGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
53157 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
53178 TATCGCGTTGCGATAGTCAA
1 TATCGCGTTGCGAAAGTCAG
*
53198 TATCGCATTGCGA
1 TATCGCGTTGCGA
53211 TTTTCCAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.76
21 14 0.17
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:53211 original size:20 final size:19
Alignment explanation
Indices: 53077--53211 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 19
53067 CGCTTTGAAA
* *
53077 ATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGA-TA-GTAAT
* * *
53098 ATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGT-AAT
*
53118 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAA-T
* * *
53138 ATTGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGT-AAT
* *
53158 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGA--TAGTAAT
53179 ATCGCGTTGCGATAGTCAAT
1 ATCGCGTTGCGATAGT-AAT
*
53199 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
53212 TTTCCAAATT
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
19 6 0.06
20 60 0.65
21 25 0.27
22 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (19 bp):
ATCGCGTTGCGATAGTAAT
Found at i:53214 original size:41 final size:41
Alignment explanation
Indices: 53077--53212 Score: 168
Period size: 41 Copynumber: 3.3 Consensus size: 41
53067 CGCTTTGAAA
*
53077 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
53118 ATCGCGTTGCGA--AAGTAAGTATTGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
53158 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
53199 ATCGCATTGCGATT
1 ATCGCATTGCGATT
53213 TTCCAAATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 43 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:53247 original size:20 final size:21
Alignment explanation
Indices: 53200--53251 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
53190 ATAGTCAATA
*
53200 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
53221 TCACATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
53241 TCGCATTGCGA
1 TCGCATTGCGA
53252 ATTGGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:54247 original size:20 final size:20
Alignment explanation
Indices: 54222--54268 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
54212 CATACACATT
*
54222 TAAACGATCCTAGATGAACA
1 TAAACGATCCTAAATGAACA
54242 TAAACGATCCTAAATGAACA
1 TAAACGATCCTAAATGAACA
54262 TAAACGA
1 TAAACGA
54269 ACGTAAACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (20 bp):
TAAACGATCCTAAATGAACA
Found at i:54265 original size:10 final size:10
Alignment explanation
Indices: 54237--54279 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
54227 GATCCTAGAT
54237 GAACATAAAC
1 GAACATAAAC
* * *
54247 GATCCTAAAT
1 GAACATAAAC
54257 GAACATAAAC
1 GAACATAAAC
*
54267 GAACGTAAAC
1 GAACATAAAC
54277 GAA
1 GAA
54280 AGTAAACTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (10 bp):
GAACATAAAC
Found at i:54275 original size:20 final size:20
Alignment explanation
Indices: 54222--54275 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
54212 CATACACATT
* *
54222 TAAACGATCCTAGATGAACA
1 TAAACGAACCTAAATGAACA
*
54242 TAAACGATCCTAAATGAACA
1 TAAACGAACCTAAATGAACA
*
54262 TAAACGAACGTAAA
1 TAAACGAACCTAAA
54276 CGAAAGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.19
Consensus pattern (20 bp):
TAAACGAACCTAAATGAACA
Found at i:61506 original size:24 final size:25
Alignment explanation
Indices: 61470--61539 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
61460 AGTCGAGGGT
* *
61470 TCTACGCGATCCTTTGGGACAA-AG
1 TCTACGCGGTCCTTCGGGACAATAG
* *
61494 TCTACGTGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAG
61519 TCTACGCGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
61540 TATCTATGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAG
Found at i:61556 original size:23 final size:23
Alignment explanation
Indices: 61494--61582 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 23
61484 TGGGACAAAG
61494 TCTACGTGGTC-CTTCGGGACAATAT
1 TCTACGTGG-CACTTCGGG-C-ATAT
*
61519 TCTACGCGGTC-CTTCGGGACATA-
1 TCTACGTGG-CACTTCGGG-CATAT
* *
61542 TCTATGTGGCACTTCGATGCATAT
1 TCTACGTGGCACTTCG-GGCATAT
61566 TCTACGTGGCACTTCGG
1 TCTACGTGGCACTTCGG
61583 TGCAAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 16 0.29
24 19 0.35
25 19 0.35
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (23 bp):
TCTACGTGGCACTTCGGGCATAT
Found at i:62364 original size:23 final size:23
Alignment explanation
Indices: 62338--62417 Score: 115
Period size: 23 Copynumber: 3.5 Consensus size: 23
62328 CTCGTATAAA
*
62338 TGCACAGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
62361 TGCACCGTAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
62384 TGCACCGTAGTGCCACGTAGAAA
1 TGCACCGAAGTGCCACGTAGAAT
62407 TGCACCGAAGT
1 TGCACCGAAGT
62418 ACCATATAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:62557 original size:103 final size:103
Alignment explanation
Indices: 62430--62752 Score: 619
Period size: 103 Copynumber: 3.1 Consensus size: 103
62420 CATATAAGGT
*
62430 TGTCCCTAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
62495 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
62533 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
62598 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
62636 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
*
62701 CTCAAAAGACTTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
*
62739 TGTCCCCAAGGACC
1 TGTCCCGAAGGACC
62753 GCGTAAACTC
Statistics
Matches: 217, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 217 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
Found at i:64166 original size:20 final size:23
Alignment explanation
Indices: 64143--64219 Score: 106
Period size: 24 Copynumber: 3.4 Consensus size: 23
64133 CTTGAAGTGT
*
64143 ATCGATGCATAC-T-ACA-GTGC
1 ATCGATGCATTCTTAACATGTGC
64163 ATCGATGCATTCTTTAACATGTGC
1 ATCGATGCATTC-TTAACATGTGC
64187 ATCGATGCATTCTTTAACATGTGC
1 ATCGATGCATTC-TTAACATGTGC
64211 ATCGATGCA
1 ATCGATGCA
64220 CTACCCATGC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 11 0.21
22 1 0.02
23 3 0.06
24 37 0.71
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
ATCGATGCATTCTTAACATGTGC
Found at i:64191 original size:24 final size:24
Alignment explanation
Indices: 64159--64219 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
64149 GCATACTACA
64159 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
64183 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
64207 GTGCATCGATGCA
1 GTGCATCGATGCA
64220 CTACCCATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:64280 original size:64 final size:63
Alignment explanation
Indices: 64207--64347 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
64197 TCTTTAACAT
* * *
64207 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCAATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
64270 GATGCATCGATGCACTCCTTATGCATCAATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGA
64334 GTGCATCGATGCAC
1 GTGCATCGATGCAC
64348 ATTCAATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:67569 original size:19 final size:19
Alignment explanation
Indices: 67545--67581 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
67535 TATTATGTTT
67545 ATTTAATAAAAAAATAATG
1 ATTTAATAAAAAAATAATG
*
67564 ATTTAATTAAAAAATAAT
1 ATTTAATAAAAAAATAAT
67582 ATATAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTTAATAAAAAAATAATG
Found at i:71124 original size:14 final size:14
Alignment explanation
Indices: 71107--71137 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71097 TTATTCATTA
*
71107 AAAAATATTTTTAT
1 AAAAATATTTTAAT
71121 AAAAATATTTTAAT
1 AAAAATATTTTAAT
71135 AAA
1 AAA
71138 TAATCATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATATTTTAAT
Found at i:72761 original size:22 final size:22
Alignment explanation
Indices: 72735--72791 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
72725 TGACTTTGTG
*
72735 GGTTCACTTTGTCCCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
*
72757 GGTTCACTTTGTATCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
72779 GGTTCACTTTGTA
1 GGTTCACTTTGTA
72792 GCTTGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
GGTTCACTTTGTACCATCTGTA
Found at i:73063 original size:6 final size:6
Alignment explanation
Indices: 73052--73078 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
73042 CGAATCAGTT
73052 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
73079 CTAATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:76028 original size:13 final size:13
Alignment explanation
Indices: 76012--76054 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
76002 AAAGGGCAAA
76012 AAAAAAAAGAAGC
1 AAAAAAAAGAAGC
76025 AAAAAACAA-AAGC
1 AAAAAA-AAGAAGC
76038 AAAAAAAAGAA-C
1 AAAAAAAAGAAGC
76050 AAAAA
1 AAAAA
76055 GAAAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.29
13 18 0.64
14 2 0.07
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAGC
Found at i:76059 original size:18 final size:17
Alignment explanation
Indices: 76009--76066 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
75999 TAAAAAGGGC
**
76009 AAAAAA-AAAAAGAAGC
1 AAAAAACAAAAAGAAAA
76025 AAAAAAC-AAAAGCAAAA
1 AAAAAACAAAAAG-AAAA
76042 AAAAGAACAAAAAGAAAA
1 AAAA-AACAAAAAGAAAA
76060 AAGAAAA
1 AA-AAAA
76067 GGGGACAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 11 0.31
17 6 0.17
18 11 0.31
19 7 0.20
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAGAAAA
Found at i:76061 original size:26 final size:25
Alignment explanation
Indices: 76012--76066 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
76002 AAAGGGCAAA
*
76012 AAAAAAAAGAAGCAAAAAACAAAAG
1 AAAAAAAAGAAGCAAAAAAAAAAAG
76037 CAAAAAAAAGAA-CAAAAAGAAAAAAG
1 -AAAAAAAAGAAGCAAAAA-AAAAAAG
76063 AAAA
1 AAAA
76067 GGGGACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAAGCAAAAAAAAAAAG
Found at i:76658 original size:22 final size:22
Alignment explanation
Indices: 76630--76671 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
76620 CTACCCCAGC
*
76630 AAACCTTTGAGCATCCAATGCT
1 AAACCTTTGAGCATCAAATGCT
76652 AAACCTTTGAGCATCAAATG
1 AAACCTTTGAGCATCAAATG
76672 AACAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (22 bp):
AAACCTTTGAGCATCAAATGCT
Found at i:77748 original size:36 final size:36
Alignment explanation
Indices: 77673--77750 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
77663 GTTTTCCTTA
* ** *
77673 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCCCTAGAGACAGTTTCGCTCG
*
77709 AAACAAATTTTGTCTCCCATAG-GGCAGTTTCGCTCG
1 AAACAAATTTTGTCTCCC-TAGAGACAGTTTCGCTCG
77745 AAACAA
1 AAACAA
77751 CACATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (36 bp):
AAACAAATTTTGTCTCCCTAGAGACAGTTTCGCTCG
Found at i:78173 original size:65 final size:65
Alignment explanation
Indices: 78092--78314 Score: 319
Period size: 64 Copynumber: 3.5 Consensus size: 65
78082 TTGGAATTCA
*
78092 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAAAATTTCCCAGTATC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAAAATTTCCCAGTTTC
*
78157 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAAC-AAAATTTCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAAAATTTCCCAGTTTC
* * * * *
78221 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAA-AATTTCCCAGTTT
78286 C
65 C
* * *
78287 AG--AGC-CAATTTCAACTTCACAGCGAAGG
1 AGACAACACAAGTTCAACTTCACAACGAAGG
78315 ATATTGGACT
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
63 21 0.14
64 62 0.42
65 50 0.34
66 13 0.09
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (65 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAAAATTTCCCAGTTTC
Found at i:78357 original size:170 final size:171
Alignment explanation
Indices: 78157--78492 Score: 620
Period size: 171 Copynumber: 2.0 Consensus size: 171
78147 TCCCAGTATC
* *
78157 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAAC-AAAATTTCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
78221 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
66 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
78286 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
78327 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
*
78392 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTT
66 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
* *
78457 CAGAGTCAATTTCAACTTCACAGCGAAGTATATTGG
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
78493 CCTCGAAACA
Statistics
Matches: 160, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
170 47 0.29
171 113 0.71
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (171 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:78404 original size:235 final size:231
Alignment explanation
Indices: 77992--78456 Score: 738
Period size: 235 Copynumber: 2.0 Consensus size: 231
77982 GTGCCACTCG
* *
77992 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTCCCAATCC
1 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAATCC
*
78057 AATTTCAACTTCACAGCGAAGGATATTGGAATTCAAGACAACACAAGTTCAACTTCACAACGAAG
66 AATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAG
* * *
78122 GGGCCGCTGGTTGTTAACAAAAATTTCCCAGTATCAGACAACACAAGTTCAACTTCACAACGAAG
131 GGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACGAAG
* * *
78187 GGGCCGCTGGTTGTTAAC-AA-AATTTCCCAGTTTA
196 GGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTTA
*
78221 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAA--T
78286 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG-ACTCAAGACAACACAAGTTCAACTTCAC
64 -----CCAATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCAC
* *
78350 AACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTAAGACAGCACAAGTTCAACTTCAC
124 AACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCAC
78415 AACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTT
189 AACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTT
78457 CAGAGTCAAT
Statistics
Matches: 215, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
229 59 0.27
231 1 0.00
235 110 0.51
236 33 0.15
237 12 0.06
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (231 bp):
AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAATCC
AATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAG
GGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACGAAG
GGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTTA
Found at i:78406 original size:65 final size:66
Alignment explanation
Indices: 78326--78456 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 66
78316 TATTGGACTC
*
78326 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCAGT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTT-CCCAGT
78389 TT
65 TT
*
78391 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
78456 T
66 T
78457 CAGAGTCAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
65 50 0.81
66 10 0.16
67 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (66 bp):
AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
T
Found at i:78440 original size:106 final size:104
Alignment explanation
Indices: 78221--78422 Score: 264
Period size: 106 Copynumber: 1.9 Consensus size: 104
78211 TCCCAGTTTA
*
78221 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
* * * * *
78286 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
66 AAGAGCCAAGTTCAACTTCACAACGAAGGACACTGGACT
* *
78325 CAAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCAG
1 --AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTT-CCCAA
78388 TTTAAGACAGCACAAGTTCAACTTCACAACGAAGG
63 TTTAAG--AGC-CAAGTTCAACTTCACAACGAAGG
78423 GGCCGCTGGC
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
104 2 0.02
105 11 0.13
106 49 0.57
107 3 0.03
108 21 0.24
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (104 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
AAGAGCCAAGTTCAACTTCACAACGAAGGACACTGGACT
Found at i:81048 original size:13 final size:13
Alignment explanation
Indices: 81030--81087 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
81020 CAATCAGAAT
*
81030 AAAAAGGGCAAAA
1 AAAAAGAGCAAAA
81043 AAAAAGAAGCAAAA
1 AAAAAG-AGCAAAA
81057 AACAAA-AGC-AAA
1 AA-AAAGAGCAAAA
*
81069 AAAAAGAACAAAA
1 AAAAAGAGCAAAA
81082 AGAAAA
1 A-AAAA
81088 AAGAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.08
12 7 0.18
13 13 0.34
14 12 0.32
15 3 0.08
ACGTcount: A:0.78, C:0.09, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAGCAAAA
Found at i:81054 original size:14 final size:14
Alignment explanation
Indices: 81037--81087 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
81027 AATAAAAAGG
81037 GCAAAAAAAAAGAA
1 GCAAAAAAAAAGAA
*
81051 GCAAAAAACAA-AA
1 GCAAAAAAAAAGAA
81064 GC-AAAAAAAAGAA
1 GCAAAAAAAAAGAA
81077 -CAAAAAGAAAA
1 GCAAAAA-AAAA
81088 AAGAAAAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 8 0.25
13 10 0.31
14 14 0.44
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (14 bp):
GCAAAAAAAAAGAA
Found at i:81087 original size:18 final size:17
Alignment explanation
Indices: 81039--81094 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
81029 TAAAAAGGGC
**
81039 AAAA-AAAAAGAAGCAA
1 AAAACAAAAAGAAAAAA
81055 AAAAC-AAAAGCAAAAAA
1 AAAACAAAAAG-AAAAAA
81072 AAGAACAAAAAGAAAAAA
1 AA-AACAAAAAGAAAAAA
81090 GAAAA
1 -AAAA
81095 GGGGACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 9 0.27
17 6 0.18
18 11 0.33
19 7 0.21
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAGAAAAAA
Found at i:81089 original size:26 final size:25
Alignment explanation
Indices: 81040--81094 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
81030 AAAAAGGGCA
*
81040 AAAAAAAAGAAGCAAAAAACAAAAG
1 AAAAAAAAGAAGCAAAAAAAAAAAG
81065 CAAAAAAAAGAA-CAAAAAGAAAAAAG
1 -AAAAAAAAGAAGCAAAAA-AAAAAAG
81091 AAAA
1 AAAA
81095 GGGGACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAAGCAAAAAAAAAAAG
Found at i:81094 original size:13 final size:13
Alignment explanation
Indices: 81037--81094 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
81027 AATAAAAAGG
81037 GCAAAAAAAAAGAA
1 GCAAAAAAAAA-AA
*
81051 GCAAAAAACAAAA
1 GCAAAAAAAAAAA
*
81064 GCAAAAAAAAGAA
1 GCAAAAAAAAAAA
81077 -CAAAAAGAAAAAA
1 GCAAAAA-AAAAAA
81090 G-AAAA
1 GCAAAA
81095 GGGGACAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 6 0.16
13 22 0.58
14 10 0.26
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (13 bp):
GCAAAAAAAAAAA
Found at i:81466 original size:41 final size:42
Alignment explanation
Indices: 81385--81468 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 42
81375 ATAATTTCGT
*
81385 CTCCACACGTTTATAATATTTACATATATATATATTAGTATTA
1 CTCCACACGTTTATAATATTTA-ATATATATATATGAGTATTA
*
81428 CTCCACACTTTTATAATATTT-ATATATATATATGAGTATTA
1 CTCCACACGTTTATAATATTTAATATATATATATGAGTATTA
81469 ATTTTATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 19 0.49
43 20 0.51
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (42 bp):
CTCCACACGTTTATAATATTTAATATATATATATGAGTATTA
Found at i:82425 original size:2 final size:2
Alignment explanation
Indices: 82420--82481 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
82410 TACGTTTTAT
*
82420 TA TA TA TA TA TA TA T- TA T- TA T- TG T- TA T- TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
82455 TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
82482 GTACGCATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 7 0.14
2 44 0.86
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (2 bp):
TA
Found at i:82557 original size:22 final size:20
Alignment explanation
Indices: 82515--82572 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 20
82505 ATTTCTTTAC
*
82515 TTCT-TTATTATTATATTTA
1 TTCTATTATTATTATATTTT
*
82534 TT-TA-CATTATT-TATTTT
1 TTCTATTATTATTATATTTT
82551 TTCTATTATTATTATATTTT
1 TTCTATTATTATTATATTTT
82571 TT
1 TT
82573 TTCCTCCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 8 0.25
20 8 0.25
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTATTATTATTATATTTT
Found at i:83773 original size:27 final size:28
Alignment explanation
Indices: 83709--83775 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
83699 CCTAAACCCG
*
83709 AACCCGACCCGAATATTACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
83737 AACCCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGAATATCACACTTAAAAA
*
83764 AACCCAACCCGA
1 AACCCGACCCGA
83776 CCCGAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.45, C:0.34, G:0.07, T:0.13
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:84130 original size:214 final size:214
Alignment explanation
Indices: 83737--84178 Score: 712
Period size: 212 Copynumber: 2.1 Consensus size: 214
83727 CACTTAAAAA
83737 AACCCGACCCGAATATCACACTTAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCATCCGA
1 AACCCGACCCGAATATCACACTT-AAAAA--CAACCCGACCCGAACAAAATAAAGTTTCATCCGA
*
83802 CCCGACCCGAATATATAAATTAGAAATCCGACCTGACCCAACCCGAAATAATAAAAAAAATTATT
63 CCCGACCCGAATATATAAATTAGAAATCCGACCTAACCCAACCCGAAATAAT-AAAAAAATTATT
*
83867 TTTATTTAATAAAAACAGTGACTTAATCCGACCTGACCCGAATTATATATATTTTCGGGTCGGTC
127 TTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTC
*
83932 CGGTTTTTTTTCACCCTAAAACCG
192 CAG-TTTTTTTCACCCTAAAACCG
* * *
83956 AAGCCGACCCGAATATTACACTT-AAAA-AACCCGACCTGAACAAAATAAAGTTTTC-TCCGACC
1 AACCCGACCCGAATATCACACTTAAAAACAACCCGACCCGAACAAAATAAAG-TTTCATCCGACC
* *
84018 CGACCCGAATATATGAATTAGAAATCCGACCTAACCCGACCCGAAATAAT-AAAAAATTATTTTT
65 CGACCCGAATATATAAATTAGAAATCCGACCTAACCCAACCCGAAATAATAAAAAAATTATTTTT
84082 ATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCAG
130 ATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCAG
*
84147 TTTTTTTCACCCTAAACCCG
195 TTTTTTTCACCCTAAAACCG
*
84167 AACCCGATCCGA
1 AACCCGACCCGA
84179 CCCGACCAAA
Statistics
Matches: 211, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
211 29 0.14
212 77 0.36
214 76 0.36
215 4 0.02
217 4 0.02
219 21 0.10
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (214 bp):
AACCCGACCCGAATATCACACTTAAAAACAACCCGACCCGAACAAAATAAAGTTTCATCCGACCC
GACCCGAATATATAAATTAGAAATCCGACCTAACCCAACCCGAAATAATAAAAAAATTATTTTTA
TTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCAGT
TTTTTTCACCCTAAAACCG
Found at i:85876 original size:2 final size:2
Alignment explanation
Indices: 85855--85899 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
85845 TACTTCACTC
* * *
85855 TA TA TG TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85897 TA T
1 TA T
85900 GTCTCTAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89761 original size:23 final size:22
Alignment explanation
Indices: 89729--89792 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 22
89719 AATGTTTGCA
* * *
89729 AATATATTCGTTTACCGTTCGT
1 AATATGTTCGTTTATCGTTCAT
89751 GAATATGTTCGTTTATCGTTCAT
1 -AATATGTTCGTTTATCGTTCAT
*
89774 AACATGTTCGTTTATCGTT
1 AATATGTTCGTTTATCGTT
89793 TGGTGACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (22 bp):
AATATGTTCGTTTATCGTTCAT
Found at i:89783 original size:22 final size:23
Alignment explanation
Indices: 89735--89792 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
89725 TGCAAATATA
* * *
89735 TTCGTTTACCGTTCGTGAATATG
1 TTCGTTTATCGTTCATGAACATG
89758 TTCGTTTATCGTTCAT-AACATG
1 TTCGTTTATCGTTCATGAACATG
89780 TTCGTTTATCGTT
1 TTCGTTTATCGTT
89793 TGGTGACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTCGTTTATCGTTCATGAACATG
Found at i:98440 original size:13 final size:13
Alignment explanation
Indices: 98422--98454 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
98412 ACCTGCAATT
98422 TTAAAAATTAAAA
1 TTAAAAATTAAAA
98435 TTAAAAA-TAAAA
1 TTAAAAATTAAAA
*
98447 CTAAAAAT
1 TTAAAAAT
98455 CGGAGGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:103055 original size:103 final size:103
Alignment explanation
Indices: 102876--103088 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 103
102866 GGGTCTACGC
* * **
102876 GGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTTTTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
102941 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
*
102979 GGTCCTTCGGGGCATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
103044 CCCTAGTATATGTATATGATTCTAAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
103082 GGTCCTT
1 GGTCCTT
103089 ATGGACATTA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
Found at i:103171 original size:23 final size:23
Alignment explanation
Indices: 103112--103172 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
103102 TATGGCATTA
* *
103112 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTATATGCGGCACTC
* *
103135 CGGTGCAATTATATGTGGCACTT
1 CGGTGCAATTATATGCGGCACTC
*
103158 TGGTGCAATTATATG
1 CGGTGCAATTATATG
103173 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCAATTATATGCGGCACTC
Found at i:107489 original size:19 final size:19
Alignment explanation
Indices: 107465--107511 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
107455 ATGCAATTAG
107465 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
107484 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
107503 TGCATCGAT
1 TGCATCGAT
107512 ACATCCCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:108507 original size:104 final size:104
Alignment explanation
Indices: 108327--108535 Score: 328
Period size: 104 Copynumber: 2.0 Consensus size: 104
108317 TCTACGCGGT
* ** *
108327 CCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAGGTCTTTTGAGACACATACTTGATCCT
1 CCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCC
* *
108392 TGGCACATGTATATGATTCTTAAGGAATGATATGTGGTC
66 TAGCACATGTATATGATTCTAAAGGAATGATATGTGGTC
*
108431 CCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCC
1 CCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCC
** *
108496 TATTATATGTATATGATTCTAAAGGAATGATATGTGGTC
66 TAGCACATGTATATGATTCTAAAGGAATGATATGTGGTC
108535 C
1 C
108536 TTATGGACAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 95 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (104 bp):
CCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCC
TAGCACATGTATATGATTCTAAAGGAATGATATGTGGTC
Found at i:108620 original size:23 final size:23
Alignment explanation
Indices: 108562--108621 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
108552 ATGGAACTAC
* *
108562 GGTGCAATTCTACGTGGCACTCT
1 GGTGCAATTATATGTGGCACTCT
*
108585 GGTGCAATTATATGTGGCACTTT
1 GGTGCAATTATATGTGGCACTCT
*
108608 GGTGTAATTATATG
1 GGTGCAATTATATG
108622 AGTTGTGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (23 bp):
GGTGCAATTATATGTGGCACTCT
Found at i:109531 original size:28 final size:29
Alignment explanation
Indices: 109475--109531 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
109465 ATATTTTTTG
* *
109475 TGGGTTAAATGTTTAAGAATTTAGATTTA
1 TGGGTTAAATGTTTAACAATTGAGATTTA
* *
109504 TGGGTT-AATGTTTAACCATTGAGGTTTA
1 TGGGTTAAATGTTTAACAATTGAGATTTA
109532 GTGATGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (29 bp):
TGGGTTAAATGTTTAACAATTGAGATTTA
Found at i:111036 original size:14 final size:14
Alignment explanation
Indices: 111017--111056 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
111007 TTAATATTAA
*
111017 AAATAAAAATAAAG
1 AAATAAAAACAAAG
111031 AAAT-AAAACAAAG
1 AAATAAAAACAAAG
*
111044 AAAAAAAAACAAA
1 AAATAAAAACAAA
111057 CGCTCACGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (14 bp):
AAATAAAAACAAAG
Found at i:115233 original size:78 final size:77
Alignment explanation
Indices: 115101--115256 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 77
115091 CGAGGTTTTT
* * *
115101 TGGGTTTAAGTTTCTATTCAAGTGATGAATAGGAAATTTTGAAAAGGAAGATTCAATTTTTTGAA
1 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAA-TTTTTGAA
115166 GAACAAAAACCAA
65 GAACAAAAACCAA
* * *
115179 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAATGAATATTCAATTTTTGTAG
1 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAATTTTTGAAG
115244 AACAAAAACCAA
66 AACAAAAACCAA
115256 T
1 T
115257 AATCACTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 21 0.29
78 51 0.71
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (77 bp):
TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAATTTTTGAAG
AACAAAAACCAA
Found at i:120001 original size:204 final size:208
Alignment explanation
Indices: 119512--120097 Score: 858
Period size: 205 Copynumber: 2.8 Consensus size: 208
119502 ATTTAAGAAT
* *
119512 TAAATTGAACAAATATGAAATT--AAA-AAAAATTTAAATAAATTAAACAACACATTGATGAGGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA---A-AAGGG
* *
119574 ATCAAATCGAAATAA-TTTAAATTGTGAGGTTGAAATT-ATACAAAAATATACTAAATTATACCC
62 ATCAAATCGAAATAATTTTAAATTCTGAGGTT-AAATTAATACAAAAATGTACTAAATTATACCC
* * *
119637 ATTT-AAAA-TATATGGGCCAATTTAAAATATAAATAAGTAATAAGTATGAGTCAATTTTAGATT
126 ATTTAAAAAGT-TATGGGCCAATTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGAGT
119700 GCAAATAAATTTGGAGGAC
190 GCAAATAAATTTGGAGGAC
*
119719 TAAATTGAACAAATATGAAATTACAAAT-AAAATTTAAATATATTAAACAACACAAAAGTGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
*
119783 AATCGAAATAATTTTAAATTCTGAGATTAAATTAATACAAAAA-GTACTAAATTATACCCATTTA
66 AATCGAAATAATTTTAAATTCTGAGGTTAAATTAATACAAAAATGTACTAAATTATACCCATTTA
* *
119847 AAAAGTTAT-GGCCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAG-GTGCAAAT
131 AAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGAGTGCAAAT
119910 AAAATTT-GAGGAC
196 -AAATTTGGAGGAC
*
119923 TAAA-TGAACAAATATGAAATTACAAATAAAAATTTAAATATACTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* *
119987 AATCGAAATAATTTTAAATTTTGAGGTTAAATTAATACAAAAATGTACTAAATTATACTCATTTA
66 AATCGAAATAATTTTAAATTCTGAGGTTAAATTAATACAAAAATGTACTAAATTATACCCATTTA
* *
120052 AAAAGTTATGGGTCAATTAATAAATCTAAATAAGTAATAAGT-TGAG
131 AAAAGTTATGGGCCAATTAA-AAATATAAATAAGTAATAAGTATGAG
120098 AAAAAAATTA
Statistics
Matches: 347, Mismatches: 20, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
203 23 0.07
204 92 0.27
205 119 0.34
206 43 0.12
207 42 0.12
209 28 0.08
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (208 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTCTGAGGTTAAATTAATACAAAAATGTACTAAATTATACCCATTTA
AAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGAGTGCAAAT
AAATTTGGAGGAC
Found at i:120154 original size:20 final size:20
Alignment explanation
Indices: 120129--120215 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
120119 AGATATATTA
120129 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
*
120149 ATATAAAGTATAT-GTATTATGT
1 ATATAAACTATATAGT-TTA--T
*
120171 ATACAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* * *
120191 ATTTTATCTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
120211 ATATA
1 ATATA
120216 TTATGTATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.04
20 35 0.65
22 15 0.28
23 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:120190 original size:22 final size:21
Alignment explanation
Indices: 120111--120216 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 21
120101 AAAATTAAAC
*
120111 AACTATATAGATATATTAATATA
1 AACTATATAG-TTTATT-ATATA
120134 AACTATATAGTTTA-TATATA
1 AACTATATAGTTTATTATATA
* *
120154 AAGTATAT-GTATTATGTATACA
1 AACTATATAGT-TTAT-TATATA
* *
120176 AACTATATAGTTTA-TATTTT
1 AACTATATAGTTTATTATATA
*
120196 ATCTATATAGTTTATATATAT
1 AACTATATAGTTTAT-TATAT
120217 TATGTATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.03
20 31 0.46
21 1 0.01
22 22 0.32
23 12 0.18
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
AACTATATAGTTTATTATATA
Found at i:120419 original size:18 final size:19
Alignment explanation
Indices: 120384--120424 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
120374 ATGTATAAAT
*
120384 TATAGTTTTTTATAATTA-
1 TATAGTTTTATATAATTAG
120402 TATAG-TTTATATATATTAG
1 TATAGTTTTATATA-ATTAG
120421 TATA
1 TATA
120425 TATGGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
TATAGTTTTATATAATTAG
Found at i:120514 original size:25 final size:28
Alignment explanation
Indices: 120472--120523 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
120462 AAACTACCTA
*
120472 TATTTATATTACATACTATATTTTATAC
1 TATTTATATTACATACTATAGTTTATAC
120500 TATTTATA-TA-A-ACTATAGTTTATA
1 TATTTATATTACATACTATAGTTTATA
120524 TTTGTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 1 0.04
27 2 0.09
28 8 0.35
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (28 bp):
TATTTATATTACATACTATAGTTTATAC
Found at i:120544 original size:30 final size:31
Alignment explanation
Indices: 120498--120700 Score: 105
Period size: 30 Copynumber: 6.7 Consensus size: 31
120488 TATATTTTAT
* * * *
120498 ACTATTTATATAAACTATAGTTTATATTTGT
1 ACTATATATATAAACTATAGTTTACATATGA
*
120529 A-TATATATATGAACTATAGTTTACATATGA
1 ACTATATATATAAACTATAGTTTACATATGA
*
120559 ACTATATATATATATATTCTA-AGGTTA-ATAT--
1 ACTATATATATA-A-A--CTATAGTTTACATATGA
*
120590 --T-TATATATGAACTATAGTTTACATA--A
1 ACTATATATATAAACTATAGTTTACATATGA
*
120616 ACTATATAGTTTATACTAACTATAGTTTAGATA-GA
1 ACTATATA---TATA--AACTATAGTTTACATATGA
*
120651 ACTGTATATA-AATTA-TATAG-TTACATATGA
1 ACTATATATATAA--ACTATAGTTTACATATGA
*
120681 CCTATATATAT--ACTATAGTT
1 ACTATATATATAAACTATAGTT
120701 GATAT
Statistics
Matches: 134, Mismatches: 15, Indels: 48
0.68 0.08 0.24
Matches are distributed among these distances:
24 3 0.02
25 5 0.04
26 4 0.03
27 2 0.01
28 13 0.10
29 13 0.10
30 40 0.30
31 12 0.09
32 6 0.04
33 5 0.04
34 20 0.15
35 11 0.08
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (31 bp):
ACTATATATATAAACTATAGTTTACATATGA
Done.